I am aiming to call somatic variants with the method of single cell RNA sequencing of sample data sets. I have a raw fastq file and will demultiplex with 'BBMAP demuxbyname code' to single cell fastq files.
I wanna know 1. which one is the barcode and UMI (in which read : 1 or 2) and 2. Which should I use among barcode and UMI to split into single cells and 3. How
My data is single end read since it is single cell data.
more details are welcomed with the real-used experienced coded.